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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTTAAGCTAGCTGATTTGTCAAAGGAAAAGAGATTGTCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacattttattttatcgtcactggttttaggttttggcttttttatgttctttgcctgattttgctgactattgacatgaaacag

Basic information

species Arabidopsis thaliana
transcript AT3G61260.1
intron # 3
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|125098709|gb|EL154755.1|EL154755
EST:     TCTTTCGTCAGAGCGGGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAG
genomic: TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAG
EST: gi|125249652|gb|EL263737.1|EL263737
EST:     TCTTTCGTCAGAACGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAA
genomic: TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAA
EST: gi|125298484|gb|EL312569.1|EL312569
EST:     TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATG
genomic: TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATG
EST: gi|124740681|gb|EH831843.1|EH831843
EST:     TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGA
genomic: TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGA
EST: gi|124909384|gb|EH983464.1|EH983464
EST:     TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATG
genomic: TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATG
EST: gi|116446100|gb|EG488692.1|EG488692
EST:     TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAATAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
genomic: TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
EST: gi|125024453|gb|EL096722.1|EL096722
EST:     AGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
genomic: AGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
EST: gi|124836676|gb|EH921115.1|EH921115
EST:     AAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGT
genomic: AAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
EST: gi|124910044|gb|EH984124.1|EH984124
EST:     CTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGTAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAG
genomic: CTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAG-AGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAG
EST: gi|124776723|gb|EH866798.1|EH866798
EST:     CAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGA
genomic: CAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAG-
EST: gi|125123239|gb|EL169688.1|EL169688
EST:     AGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
genomic: AGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
EST: gi|124705958|gb|EH797360.1|EH797360
EST:     TTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGAT
genomic: TTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGAT
EST: gi|86080975|gb|DR376732.1|DR376732
EST:     TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
genomic: TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
EST: gi|116446101|gb|EG488693.1|EG488693
EST:     TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAATAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
genomic: TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
EST: gi|125012038|gb|EL084307.1|EL084307
EST:     AGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGGTTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
genomic: AGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
EST: gi|125262961|gb|EL277046.1|EL277046
EST:     TTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAA
genomic: TTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAA
EST: gi|116446103|gb|EG488695.1|EG488695
EST:     TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAATAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
genomic: TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAGC
EST: gi|125212527|gb|EL227481.1|EL227481
EST:     CTTTCGTCATAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAG
genomic: CTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTTGGGAAAACAGCAAGAAAG
EST: gi|124847339|gb|EH931776.1|EH931776
EST:     AAGAAAGCGAAAAGAAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCTT
genomic: AAGAAAGCGAAAAG-AGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCTT
EST: gi|124874305|gb|EH955950.1|EH955950
EST:     TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAA                         AGCTGAGAAGAAGATTGCAGATGTTCATGCT
genomic: TCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacatt ... catgaaacagAGCTGAGAAGAAGATTGCAGATGTTCATGCT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGTTAAGCTAGCTGATTTGTCAAAGGAAAAGAGATTGTCTTTCGTCAGAGCGTGGGAAGAAAGCGAAAAGAGCAAAGCAGAGAACAAgtaagacattttattttatcgtcactggttttaggttttggcttttttatgttctttgcctgattttgctgactattgacatgaaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG